Sequence
atgc intronic sequence ATGC exonic sequenceAGGCCAAGGGTGTGCATTCTAGGTGGTGGCTTTGGAGGATTGTACACAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAGgtgatgtttctactagttaatagcaatctgtttgcaagatacttgttgttctgaatactttttaatgttcttgtattgatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08740.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08740.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os06g11140.1 (Oryza sativa), 5'ss of exon 3
AGGCCAAGGGTGTGCATTCTAGGTGGTGGCTTTGGAGGATTGTACACAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAGgtga--tgtttctactagt-taatagcaatctgtttgcaagatacttgttgttctgaatactttttaatgttcttgtattgatcag-----------------------------------------------------------------------------------------------------
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CGTCCACGAGTGTGCATCTTGGGTGGTGGATTTGGTGGCCTGTACACTGCTCTTAGATTAGAATCTCTTGTATGGCCCAATGATAAGAAGCCTCAGgtaaaatgatcatgctcttatgctggaaattccatttagatttgcagagtgctatacctgtttttatatatcttgatacataacggtcatagtggtgtttgcaatttgacaattttatcagtgactcatgtgcactcgctaaacaattgatgtgatattttactaagaaaatgaaattacgtttcag
upper sequence: AT5G08740.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G080044_T01 (Zea mays), 5'ss of exon 3
AGGCCAAGGGTGTGCATTCTAGGTGGTGGCTTTGGAGGATTGTACACAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAGgtga--tgtttctactagttaatagcaatctgtttgcaagatacttgttgttctgaatacttt----ttaatgttcttgtattgatcag------------------------------------------------------------------------------
|| ||| | ||||||||| |||||||||| ||||| || ||||||| ||||| ||| | ||||||||||| ||||| | || || | ||||||||| | || | | || | ||| | || ||| | | | | || || || | | | || | | | |
AGACCACGAGTGTGCATTTTAGGTGGTGGGTTTGGTGGCCTGTACACCGCTTTAAGACTTGAATCTCTTGTGTGGCCCAATGATAAGAGGCCTCAGgtaaattgatgatgctcttatgctagaatgttcttccaaattccctatgtatccttttatcttgatctgcaggaaattacactccttataaaccacataaattttcttcatgggaatttatgtgatcatactgtaatagtttactaataaagtaatacaaattgcag
upper sequence: AT5G08740.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv07s0031g02690.t01 (Vitis vinifera), 5'ss of exon 3
AGGCCAAGGGTGTGCATTCTAGGTGGTGGCTTTGGAGGATTGTACACAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAGgt-gatgtttctactagttaatagcaatctgtttgcaagatacttgttgttctgaatactttttaatgttctt----gtattgatcag------------
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AAGCCCAGAGTGTGCATACTAGGTGGCGGCTTTGGAGGTTTATATACGGCCTTAAGGCTAGAATCCCTTGTATGGCCAGAGGACAAGAAACCTCAGgtaggtcatgttaagtcataatttggattctttttcttttcttttcctttttggaatctgtttcattttcctttagggtggtgcttatcttttccaaagaMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|19878101|gb|AU238932.1|AU238932EST: CAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAG GTGGTTTTGGTTGACCAATCCGAACGTTTTGTGTTCAAGCCCATGTTGTAT
genomic: CAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAGgtgatgtttc ... tattgatcagGTGGTTTTGGTTGACCAATCCGAACGTTTTGTGTTCAAGCCCATGTTGTAT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGCCAAGGGTGTGCATTCTAGGTGGTGGCTTTGGAGGATTGTACACAGCTTTGAGATTAGAATCTCTTGTTTGGCCTGAAGACAAAAAGCCTCAGgtgatgtttctactagttaatagcaatctgtttgcaagatacttgttgttctgaatactttttaatgttcttgtattgatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA